Plant Circular RNA Database

Detail information of Os07g0605200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0605200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_034689
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 24791477-24792910  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0605200						
					
						Parent gene annotation
						
							APETALA1 (AP1)/ FRUITFULL (FUL)-like MADS box transcription fact
or, Specification of inflorescence meristem identity (Os07t06052
00-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os07t0605200-01:6

General Information
CircRNA Name	Os07g0605200_circ_g.1
ID in PlantcircBase	osa_circ_034689
Alias	NA
Organism	Oryza sativa
Position	chr7: 24791477-24792910 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0605200
Parent gene annotation	APETALA1 (AP1)/ FRUITFULL (FUL)-like MADS box transcription fact or, Specification of inflorescence meristem identity (Os07t06052 00-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	1
Tissues	shoot
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os07t0605200-01:6

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							TAATAAACACTAACCGGGAGGAGCAAAATGGAGCAACACCAAGCACATCATCACCAACACCAGT
GACGGCTCCAGATCCCATCCCGACAACAAATAACAGtatggaagggatccttgaacgctaccag
cgttactcgtttgatgaaagagccgtactggagccaaatactgaggaccaggtaaaaaaacatc
cctgactg

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 459
Transcript exons: 24791477-24791555,24791650-24791714,24791794-24791893,24
792009-24792050,24792642-24792680,24792777-24792910
TATGGAAGGGATCCTTGAACGCTACCAGCGTTACTCGTTTGATGAAAGAGCCGTACTGGAGCCA
AATACTGAGGACCAGGAAAACTGGGGTGATGAATATGGAATTTTGAAGTCCAAACTGGATGCAC
TTCAGAAGAGCCAAAGGCAACTCTTAGGTGAACAATTGGACACACTAACAATAAAAGAACTCCA
GCAATTGGAACATCAACTGGAATATTCTCTGAAGCATATAAGATCAAAAAAGAATCAGCTTCTG
TTTGAATCAATTTCTGAGCTTCAGAAGAAGGAAAAGTCACTTAAAAACCAGAATAATGTTCTGC
AAAAGCTCATGGAGACAGAAAAGGAGAAAAACAATGCTATAATAAACACTAACCGGGAGGAGCA
AAATGGAGCAACACCAAGCACATCATCACCAACACCAGTGACGGCTCCAGATCCCATCCCGACA
ACAAATAACAG
						
					

						Genomic sequence
						
							TATGGAAGGGATCCTTGAACGCTACCAGCGTTACTCGTTTGATGAAAGAGCCGTACTGGAGCCA
AATACTGAGGACCAGGTAAAAAAACATCCCTGACTGTTGGAGAACTATCTCCGGCTGTTTATTT
AACTAGCTGGTTAGTTATCTGATCTTGATATTCATTTTCTCCTAGGAAAACTGGGGTGATGAAT
ATGGAATTTTGAAGTCCAAACTGGATGCACTTCAGAAGAGCCAAAGGTACTGCAAACTTTCTTA
AGAAATTTTCACTTTGGTAACAAGATTATGCTAACTTGAGTTGGTCTATCTACTGCTCAAGGCA
ACTCTTAGGTGAACAATTGGACACACTAACAATAAAAGAACTCCAGCAATTGGAACATCAACTG
GAATATTCTCTGAAGCATATAAGATCAAAAAAGGTGAAATTTGTGTCCATTATGCACTGTTGAC
TGAGGGATCAAATTTGCTTGATTTAATTATTTCCAACTAATCTTTGAAAACATCATTACTTTCC
TTTTTGTTTTTCTTTTGCAGAATCAGCTTCTGTTTGAATCAATTTCTGAGCTTCAGAAGAAGGT
AGGTTACCCTCAATGTGGCTCCTTAAATAGCAATGTAGCAGTCTGTTTATACCATATTGTTTTG
GAGTATTAAAGTTGCATTCAAACAATTTTCAGACAACTAACTCTTCTTGCCTTCTACCAGAATA
TATTCATGTAAAACATGTCTTTTGGCAATTCTAGAAATTCCATTATAAGAAGAAATCATTAGTC
AATTTGAATCACCTAAGGAACTAACGAGAAGCCACTTGTCTTGGTCATATTGTGGGAAATGCAC
AATGTTGTCAAATGGGTATAACAGGAAAGTCGCCATCAATGTATATATTCTAGGGGAGAGAGAA
CAGACTAAGTCAGACTACGTTGTAAAATTGAACATTCTACGGGAAAATAAATCTTCGATGCATA
TGGCAAGGACTTGACCGTTAGCCTTTTACGCAATAATGTATGCATAAACATAGGGAAAAAAAAG
GACCTGCACTACTGATTGTTACTGTATCTGATCTGGCAAGTGGCAACAGAGCCATGTTAATATT
GTGCTGAGAAATGGACGAAGTTGATATAGGTTCGTGCTGATGAATATTCTTACAATCTGCTATC
TTCCTGTCTGCAGGAAAAGTCACTTAAAAACCAGAATAATGTTCTGCAAAAGGTAAATTTCATT
CTTGTTTACAACAATGTTTTATATCAGATCACTACAAAAGCTGTATTGGAGGTCAAACCCTTTT
GTCTACATTCTTCGGAGCAGCTCATGGAGACAGAAAAGGAGAAAAACAATGCTATAATAAACAC
TAACCGGGAGGAGCAAAATGGAGCAACACCAAGCACATCATCACCAACACCAGTGACGGCTCCA
GATCCCATCCCGACAACAAATAACAG
						
					

			
		

Sequences
Splice junction sequence	TAATAAACACTAACCGGGAGGAGCAAAATGGAGCAACACCAAGCACATCATCACCAACACCAGT GACGGCTCCAGATCCCATCCCGACAACAAATAACAGtatggaagggatccttgaacgctaccag cgttactcgtttgatgaaagagccgtactggagccaaatactgaggaccaggtaaaaaaacatc cctgactg
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 459 Transcript exons: 24791477-24791555,24791650-24791714,24791794-24791893,24 792009-24792050,24792642-24792680,24792777-24792910 TATGGAAGGGATCCTTGAACGCTACCAGCGTTACTCGTTTGATGAAAGAGCCGTACTGGAGCCA AATACTGAGGACCAGGAAAACTGGGGTGATGAATATGGAATTTTGAAGTCCAAACTGGATGCAC TTCAGAAGAGCCAAAGGCAACTCTTAGGTGAACAATTGGACACACTAACAATAAAAGAACTCCA GCAATTGGAACATCAACTGGAATATTCTCTGAAGCATATAAGATCAAAAAAGAATCAGCTTCTG TTTGAATCAATTTCTGAGCTTCAGAAGAAGGAAAAGTCACTTAAAAACCAGAATAATGTTCTGC AAAAGCTCATGGAGACAGAAAAGGAGAAAAACAATGCTATAATAAACACTAACCGGGAGGAGCA AAATGGAGCAACACCAAGCACATCATCACCAACACCAGTGACGGCTCCAGATCCCATCCCGACA ACAAATAACAG
Genomic sequence	TATGGAAGGGATCCTTGAACGCTACCAGCGTTACTCGTTTGATGAAAGAGCCGTACTGGAGCCA AATACTGAGGACCAGGTAAAAAAACATCCCTGACTGTTGGAGAACTATCTCCGGCTGTTTATTT AACTAGCTGGTTAGTTATCTGATCTTGATATTCATTTTCTCCTAGGAAAACTGGGGTGATGAAT ATGGAATTTTGAAGTCCAAACTGGATGCACTTCAGAAGAGCCAAAGGTACTGCAAACTTTCTTA AGAAATTTTCACTTTGGTAACAAGATTATGCTAACTTGAGTTGGTCTATCTACTGCTCAAGGCA ACTCTTAGGTGAACAATTGGACACACTAACAATAAAAGAACTCCAGCAATTGGAACATCAACTG GAATATTCTCTGAAGCATATAAGATCAAAAAAGGTGAAATTTGTGTCCATTATGCACTGTTGAC TGAGGGATCAAATTTGCTTGATTTAATTATTTCCAACTAATCTTTGAAAACATCATTACTTTCC TTTTTGTTTTTCTTTTGCAGAATCAGCTTCTGTTTGAATCAATTTCTGAGCTTCAGAAGAAGGT AGGTTACCCTCAATGTGGCTCCTTAAATAGCAATGTAGCAGTCTGTTTATACCATATTGTTTTG GAGTATTAAAGTTGCATTCAAACAATTTTCAGACAACTAACTCTTCTTGCCTTCTACCAGAATA TATTCATGTAAAACATGTCTTTTGGCAATTCTAGAAATTCCATTATAAGAAGAAATCATTAGTC AATTTGAATCACCTAAGGAACTAACGAGAAGCCACTTGTCTTGGTCATATTGTGGGAAATGCAC AATGTTGTCAAATGGGTATAACAGGAAAGTCGCCATCAATGTATATATTCTAGGGGAGAGAGAA CAGACTAAGTCAGACTACGTTGTAAAATTGAACATTCTACGGGAAAATAAATCTTCGATGCATA TGGCAAGGACTTGACCGTTAGCCTTTTACGCAATAATGTATGCATAAACATAGGGAAAAAAAAG GACCTGCACTACTGATTGTTACTGTATCTGATCTGGCAAGTGGCAACAGAGCCATGTTAATATT GTGCTGAGAAATGGACGAAGTTGATATAGGTTCGTGCTGATGAATATTCTTACAATCTGCTATC TTCCTGTCTGCAGGAAAAGTCACTTAAAAACCAGAATAATGTTCTGCAAAAGGTAAATTTCATT CTTGTTTACAACAATGTTTTATATCAGATCACTACAAAAGCTGTATTGGAGGTCAAACCCTTTT GTCTACATTCTTCGGAGCAGCTCATGGAGACAGAAAAGGAGAAAAACAATGCTATAATAAACAC TAACCGGGAGGAGCAAAATGGAGCAACACCAAGCACATCATCACCAACACCAGTGACGGCTCCA GATCCCATCCCGACAACAAATAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007321* osi_circ_017310 						
					
						PMCS
						0.212085774

Conservation Information
Conserved circRNAs	osi_circ_007321* osi_circ_017310
PMCS	0.212085774

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0605200_circ_g.1

Address

Any questions?

Supported by